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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTATGATAAGTTCTGCCCATTCTATAAATCAGTATGGATGATGCGCAATATTGTCCACTTTAACACTCTTGCCAATCAGgtctttctctcactcgattcttactgtacagttggcatcaagtttttccggtcattactgctcttcaattagttgttcatatcttgatcaacatgtttac...

Basic information

species Physcomitrella patens
transcript PP1S10_201V6.1
intron # 18
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S10_201V6.1 (Physcomitrella patens), 5'ss of exon 18
lower sequence: LOC_Os02g07870.1 (Oryza sativa), 5'ss of exon 17
TTATGATAAGTTCTGCCCATTCTATAAATCAGTATGGATGATGCGCAATATTGTCCACTTTAACACTCTTGCCAATCAGgtct-ttctctcactcgattcttactgtacagttggcatcaagtttttccggtcattactgctcttcaattagttgttcatatcttgatcaac--atgtttac
 ||||||||||  ||||||||||| ||||| || |||||||||||||| ||| | || || |||||  | || |  |||||   ||||||   || |    | |  || | ||| ||  |  || ||  |   |  | | ||     | |||    ||||  |   |    |  ||  ||  
ATATGATAAGTATTGCCCATTCTACAAATCTGTTTGGATGATGCGCAACATTATTCATTTCAACACATTGGCAACCCAGgtaaattctcttgttccaggaattcgata-atttgcca--attttctttagaaaaccaatcctagctgactagaaaatcatgccaaaactttccaataattgt

upper sequence: PP1S10_201V6.1 (Physcomitrella patens), 5'ss of exon 18
lower sequence: GRMZM2G128877_T02 (Zea mays), 5'ss of exon 17
TTATGATAAGTTCTGCCCATTCTATAAATCAGTATGGATGATGCGCAATATTGTCCACTTTAACACTCTTGCCAATCAGgtctttctctcactcg-attcttactgtacagttggcatcaa-gtttttccggtcattactgctcttcaattagttgttcatatcttgatcaacatgtttac
 ||||||||||||||||||||||| ||||| || |||||||||||||||||| | ||||| |||||  | || ||||||||         ||| | | |  | |||||   || |  | || |||||||| |     | || | | |||| |       |  |  | |      || ||  
ATATGATAAGTTCTGCCCATTCTACAAATCCGTTTGGATGATGCGCAATATTATTCACTTCAACACATTGGCAAATCAGgtaagctctcaactagcagtacttctgtaatttttgagtaaatgtttttcctgcag--attgttttgcaatgatcaaggaaacttattaaacttctgattgt

upper sequence: PP1S10_201V6.1 (Physcomitrella patens), 5'ss of exon 18
lower sequence: GRMZM2G128877_T04 (Zea mays), 5'ss of exon 1
---------------------TTATGATAAGTTCTGCCCATTCTATAAATCAGTATGGATGATGCGCAATATTGTCCACTTTAACACTCTTGCCAATCAGgtctttctctcactcg-attcttactgtacagttggcatcaa-gtttttccggtcattactgctcttcaattagttgttcatatcttgatcaacatgtttac
                      ||||||||||||||||||||||| ||||| || |||||||||||||||||| | ||||| |||||  | || ||||||||         ||| | | |  | |||||   || |  | || |||||||| |     | || | | |||| |       |  |  | |      || ||  
ACAAGTGTTGTTTAATATTAGATATGATAAGTTCTGCCCATTCTACAAATCCGTTTGGATGATGCGCAATATTATTCACTTCAACACATTGGCAAATCAGgtaagctctcaactagcagtacttctgtaatttttgagtaaatgtttttcctgcag--attgttttgcaatgatcaaggaaacttattaaacttctgattgt

upper sequence: PP1S10_201V6.1 (Physcomitrella patens), 5'ss of exon 18
lower sequence: GRMZM2G421857_T02 (Zea mays), 5'ss of exon 17
TTATGATAAGTTCTGCCCATTCTATAAATCAGTATGGATGATGCGCAATATTGTCCACTTTAACACTCTTGCCAATCAGgtctt-tctctcactcgattcttactgtacagttggca-tcaagtttttccggtcattactgctct-tcaattagttgttcatatcttgatcaacatgtttac
 ||||||||||||||||||||||| ||||| || |||||||||||||| ||| | ||||| |||||  | || ||||||||    ||| | |  |    |   ||||   ||   || |||| | |  |   | |||  |||||   |   ||    |  ||   ||  |||| || |    
ATATGATAAGTTCTGCCCATTCTACAAATCCGTTTGGATGATGCGCAACATTATTCACTTCAACACATTGGCAAATCAGgtaaggtctttaatgcccacccccctgttttgtaaccaatcaattatcacaatttattgttgctccacctgctatcattgtattgttttgtcaagatttg---

upper sequence: PP1S10_201V6.1 (Physcomitrella patens), 5'ss of exon 18
lower sequence: Vv09s0054g00890.t01 (Vitis vinifera), 5'ss of exon 18
TTATGATAAGTTCTGCCCATTCTATAAATCAGTATGGATGATGCGCAATATTGTCCACTTTAACACTCTTGCCAATCAGgtctttctctcactcgattcttactgtacagttggcatcaagtttttccggtcattactgctcttcaattagttgttcatatcttgatcaacatgtttac-
 ||||||||||||||||| ||||| || || || |||||||||||||||||| |||| ||  | | | | |||||||||||       ||       |||   |  ||         |  ||||| |   |  |   ||  ||    || ||  |   |  |  |||||   ||| |   
ATATGATAAGTTCTGCCCCTTCTACAAGTCGGTTTGGATGATGCGCAATATTATCCATTTCTATAATTTGGCCAATCAGgtacgatgttcctctctctctctttccaccccccctcccccgttttcctttttctctttgacctattgtt-gtcatgtttgccaagatcattgtgtctgta

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|18334867|gb|BJ166884.1|BJ166884
EST:     CAGTATGGATGATGCGCAATATTGTCCACTTTAACACTCTTGCCAATCAG                         GCTGTTGAGCGAGCTACCGGTTCAGAAGGACAGAAAATCACCTACAACATC
genomic: CAGTATGGATGATGCGCAATATTGTCCACTTTAACACTCTTGCCAATCAGgtctttctct ... ttgttcccagGCTGTTGAGCGAGCTACCGGTTCAGAAGGACAGAAAATCACCTACAACATC
EST: gi|162156399|gb|FC332631.1|FC332631
EST:     CAGTATGGATGATGCGCAATATTGTCCACTTTAACACTCTTGCCAATCAG                         GCTGTTGAGCGAGCTACCGGTTCAGAAGGACAGAAAATCACCTACAACATC
genomic: CAGTATGGATGATGCGCAATATTGTCCACTTTAACACTCTTGCCAATCAGgtctttctct ... ttgttcccagGCTGTTGAGCGAGCTACCGGTTCAGAAGGACAGAAAATCACCTACAACATC
EST: gi|208375011|gb|DC956407.1|DC956407
EST:     CAGTATGGATGATGCGCAATATTGTCCACTTTAACACTCTTGCCAATCAG                         GCTGTTGAGCGAGCTACCGGTTCAGAAGGACAGAAAATCACCTACAACATC
genomic: CAGTATGGATGATGCGCAATATTGTCCACTTTAACACTCTTGCCAATCAGgtctttctct ... ttgttcccagGCTGTTGAGCGAGCTACCGGTTCAGAAGGACAGAAAATCACCTACAACATC
EST: gi|22132673|gb|BQ827281.1|BQ827281
EST:     CAGTATGGATGATGCGCAATATTGTCCACTTTAACACTCTTGCCAATCAG                         GCTGTTGAGCGAGCTACCGGTTCAGAAGGACAGAAAATCACCTACAACATC
genomic: CAGTATGGATGATGCGCAATATTGTCCACTTTAACACTCTTGCCAATCAGgtctttctct ... ttgttcccagGCTGTTGAGCGAGCTACCGGTTCAGAAGGACAGAAAATCACCTACAACATC
EST: gi|37832286|gb|BJ590298.1|BJ590298
EST:     CAGTATGGATGATGCGCAATATTGTCCACTTTAACACTCTTGCCAATCAG                         GCTGTTGAGCGAGCTACCGGTTCAGAAGGACAGAAAATCACCTACAACATC
genomic: CAGTATGGATGATGCGCAATATTGTCCACTTTAACACTCTTGCCAATCAGgtctttctct ... ttgttcccagGCTGTTGAGCGAGCTACCGGTTCAGAAGGACAGAAAATCACCTACAACATC
EST: gi|37845452|gb|BJ603460.1|BJ603460
EST:     CAGTATGGATGATGCGCAATATTGTCCACTTTAACACTCTTGCCAATCAG                         GCTGTTGAGCGAGCTACCGGTTCAGAAGGACAGAAAATCACCTACAACATC
genomic: CAGTATGGATGATGCGCAATATTGTCCACTTTAACACTCTTGCCAATCAGgtctttctct ... ttgttcccagGCTGTTGAGCGAGCTACCGGTTCAGAAGGACAGAAAATCACCTACAACATC
EST: gi|37850222|gb|BJ608230.1|BJ608230
EST:     CAGTATGGATGATGCGCAATATTGTCCACTTTAACACTCTTGCCAATCAG                         GCTGTTGAGCGAGCTACCGGTTCAGAAGGACAGAAAATCACCTACAACATC
genomic: CAGTATGGATGATGCGCAATATTGTCCACTTTAACACTCTTGCCAATCAGgtctttctct ... ttgttcccagGCTGTTGAGCGAGCTACCGGTTCAGAAGGACAGAAAATCACCTACAACATC
EST: gi|208371410|gb|DC955746.1|DC955746
EST:     CAGTATGGATGATGCGCAATATTGTCCACTTTAACACTCTTGCCAATCAG                         GCTGTTGAGCGAGCTACCGGTTCAGAAGGACAGAAAATCACCTACAACATC
genomic: CAGTATGGATGATGCGCAATATTGTCCACTTTAACACTCTTGCCAATCAGgtctttctct ... ttgttcccagGCTGTTGAGCGAGCTACCGGTTCAGAAGGACAGAAAATCACCTACAACATC
EST: gi|67724595|gb|BJ974854.1|BJ974854
EST:     CAGTATGGATGATGCGCAATATTGTCCACTTTAACACTCTTGCCAATCAG                         GCTGTTGAGCGAGCTACCGGTTCAGAAGGACAGAAAATCACCTACAACATC
genomic: CAGTATGGATGATGCGCAATATTGTCCACTTTAACACTCTTGCCAATCAGgtctttctct ... ttgttcccagGCTGTTGAGCGAGCTACCGGTTCAGAAGGACAGAAAATCACCTACAACATC
EST: gi|162165020|gb|FC342211.1|FC342211
EST:     CAGTATGGATGATGCGCAATATTGTCCACTTTAACACTCTTGCCAATCAG                         GCTGTTGAGCGAGCTACCGGTTCAGAAGGACAGAAAATCACCTACAACATC
genomic: CAGTATGGATGATGCGCAATATTGTCCACTTTAACACTCTTGCCAATCAGgtctttctct ... ttgttcccagGCTGTTGAGCGAGCTACCGGTTCAGAAGGACAGAAAATCACCTACAACATC